A5036639166- Bioinformatics and Genomic Networks
- Biomedical Text Mining and Ontologies
- Genomics, phytochemicals, and oxidative stress
- Air Quality and Health Impacts
- Computational Drug Discovery Methods
- Semantic Web and Ontologies
- Inhalation and Respiratory Drug Delivery
- Redox biology and oxidative stress
- RNA Research and Splicing
- Genomics and Rare Diseases
- Microbial Metabolic Engineering and Bioproduction
- Chronic Obstructive Pulmonary Disease (COPD) Research
- Gene expression and cancer classification
- Gene Regulatory Network Analysis
- Metabolomics and Mass Spectrometry Studies
- Asymmetric Hydrogenation and Catalysis
- Molecular Biology Techniques and Applications
- Peptidase Inhibition and Analysis
- RNA and protein synthesis mechanisms
- Effects and risks of endocrine disrupting chemicals
- Glutathione Transferases and Polymorphisms
- Adipose Tissue and Metabolism
- Viral Infectious Diseases and Gene Expression in Insects
- Chemical Synthesis and Analysis
- Asthma and respiratory diseases
Fraunhofer Institute for Algorithms and Scientific Computing
2020-2024
Fraunhofer Society
2020
University of Luxembourg
2015-2019
Philip Morris International (Germany)
2003-2015
Miltenyi Biotec (Germany)
2006
Fraunhofer Institute for Toxicology and Experimental Medicine
2006
Institut für biologische Forschung
1994-2002
State Museum of Natural History Karlsruhe
1993-1994
Organotypic culture of human primary bronchial epithelial cells is a useful in vitro system to study normal biological processes and lung disease mechanisms, develop new therapies, assess the perturbations induced by environmental pollutants. Herein, we investigate whether cigarette smoke (CS) observed epithelium smokers' airways are reproducible this (AIR-100 tissue), which has been shown recapitulate most characteristics epithelium. Human AIR-100 tissues were exposed mainstream CS for 7,...
The development of computational approaches in systems biology has reached a state maturity that allows their transition to medicine. Despite this progress, intuitive visualisation and context-dependent knowledge representation still present major bottleneck. In paper, we describe the Disease Maps Project, an effort towards community-driven computationally readable comprehensive disease mechanisms. We outline key principles framework required for success initiative, including use best...
Our growing knowledge about various molecular mechanisms is becoming increasingly more structured and accessible. Different repositories of interactions available literature enable construction focused high-quality interaction networks. Novel tools for curation exploration such networks are needed, in order to foster the development a systems biology environment. In particular, solutions visualization, annotation data cross-linking will facilitate usage network-encoded biomedical research....
Humans and other organisms are equipped with a set of responses that can prevent damage from exposure to multitude endogenous environmental stressors. If these stress overwhelmed, this result in pathogenesis diseases, which is reflected by an increased development of, e.g., pulmonary cardiac diseases humans exposed chronic levels stress, including inhaled cigarette smoke (CS). Systems biology data sets (e.g., transcriptomics, phosphoproteomics, metabolomics) could enable comprehensive...
Towards a systems toxicology-based risk assessment, we investigated molecular perturbations accompanying histopathological changes in 28-day rat inhalation study combining transcriptomics with classical histopathology. We demonstrated reduced biological activity of prototypic modified tobacco product (pMRTP) compared the reference research cigarette 3R4F. Rats were exposed to filtered air or three concentrations mainstream smoke (MS) from 3R4F, high concentration MS pMRTP. Histopathology...
Abstract Background Critical to advancing the systems-level evaluation of complex biological processes is development comprehensive networks and computational methods apply analysis systems biology data (transcriptomics, proteomics/phosphoproteomics, metabolomics, etc.). Ideally, these will be specifically designed capture normal, non-diseased tissue or cell types under investigation, can used with experimentally generated assess impact perturbations like xenobiotics other cellular stresses....
Exposure to biologically active substances such as therapeutic drugs or environmental toxicants can impact biological systems at various levels, affecting individual molecules, signaling pathways, and overall cellular processes. The ability derive mechanistic insights from the resulting system responses requires integration of experimental measures with a priori knowledge about interacting molecules therein. We developed novel biology-based methodology that leverages network models...
Towards the development of a systems biology-based risk assessment approach for environmental toxicants, including tobacco products in toxicology setting such as “21st Century Toxicology”, we are building series computable biological network models specific to non-diseased pulmonary and cardiovascular cells/tissues which capture molecular events that can be activated following exposure toxicants. Here extend on previous work report construction evaluation mechanistic model focused DNA damage...
Translational medicine is a domain turning results of basic life science research into new tools and methods in clinical environment, for example, as diagnostics or therapies. Nowadays, the process translation supported by large amounts heterogeneous data ranging from medical to whole range -omics data. It not only great opportunity but also challenge, translational big difficult integrate analyze, requires involvement biomedical experts processing. We show here that visualization...
Cigarette smoke (CS) is known to cause cancer and other diseases, but little about the global molecular cellular changes that occur prior appearance of clinically detectable symptoms. Using DNA microarrays covering 2031 cDNA probes, we investigated differential gene expression in tissues rat respiratory tract, i.e. nasal epithelium (RNE) lungs rats exposed either acutely (3 h) or subchronically h/day, 5 days/week, 3 weeks) mainstream CS with death immediately at 20 h after exposure....
Gene expression profiling in animal models exposed to cigarette mainstream smoke (CS) shapes up as a promising tool for investigating the molecular mechanisms involved onset and development of CS-related disease may aid identification candidate genes. Here we report on differential gene lungs rats 2, 7, 13 weeks 300 600 microg total particulate matter/l CS with sacrifice 6, or 20 h after last exposure. Regarding antioxidant xenobiotic-metabolizing (phase I/II) enzymes, stereotypic, mostly...
Cigarette smoke (CS) imposes a strong oxidative burden on exposed tissues resulting in severely disturbed oxidant/antioxidant balance, which the context of chronic exposure is assumed to be key contributor CS-related diseases. Because its emerging central role orchestrating general cellular antioxidant response, pathway leading activation transcription factor Nrf2 has received mounting attention over past decade investigations aimed at elucidating CS-induced pathophysiological mechanisms. To...
Exposure to environmental stressors such as cigarette smoke (CS) elicits a variety of biological responses in humans, including the induction inflammatory responses. These are especially pronounced lung, where pulmonary cells sit at interface between body's internal and external environments. We combined literature survey with computational analysis multiple transcriptomic data sets construct computable causal network model (the Inflammatory Process Network (IPN)) main processes. The IPN...
Abstract Motivation The COVID-19 pandemic has prompted an impressive, worldwide response by the academic community. In order to support text mining approaches as well data description, linking and harmonization in context of COVID-19, we have developed ontology representing major novel coronavirus (SARS-CoV-2) entities. a strong scope on chemical entities suited for drug repurposing, this is target ongoing therapeutic development. Results comprises 2270 classes concepts 38 987 axioms (2622...
The high number of failed pre-clinical and clinical studies for compounds targeting Alzheimer disease (AD) has demonstrated that there is a need to reassess existing strategies. Here, we pursue holistic, mechanism-centric drug repurposing approach combining computational analytics experimental screening data. Based on this integrative workflow, identified 77 druggable modifiers tau phosphorylation (pTau). One the upstream modulators pTau, HDAC6, was screened with 5,632 drugs in tau-specific...